miRNA display CGI


Results 1 - 17 of 17 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
3023 3' -55.3 NC_001493.1 + 18165 0.66 0.895218
Target:  5'- aGACGGCCcauUUCCUggacGCGGCCcCGAa -3'
miRNA:   3'- -CUGUCGGu--GAGGAac--UGCCGGuGUUa -5'
3023 3' -55.3 NC_001493.1 + 133719 0.66 0.895218
Target:  5'- aGACGGCCcauUUCCUggacGCGGCCcCGAa -3'
miRNA:   3'- -CUGUCGGu--GAGGAac--UGCCGGuGUUa -5'
3023 3' -55.3 NC_001493.1 + 55148 0.66 0.895218
Target:  5'- aGCAGCC--UCCUUc-CGGCCGCAGc -3'
miRNA:   3'- cUGUCGGugAGGAAcuGCCGGUGUUa -5'
3023 3' -55.3 NC_001493.1 + 45861 0.66 0.876759
Target:  5'- cGACAGCCuCUCCUcggcgagaUGugcgggcugcgcgagGCGGCCAgAAa -3'
miRNA:   3'- -CUGUCGGuGAGGA--------AC---------------UGCCGGUgUUa -5'
3023 3' -55.3 NC_001493.1 + 62593 0.66 0.873777
Target:  5'- cACGGCCACgggcacggCC---ACGGCCACGGg -3'
miRNA:   3'- cUGUCGGUGa-------GGaacUGCCGGUGUUa -5'
3023 3' -55.3 NC_001493.1 + 8453 0.66 0.873777
Target:  5'- --gAGUCACUCC-UGugGcGCCGCGc- -3'
miRNA:   3'- cugUCGGUGAGGaACugC-CGGUGUua -5'
3023 3' -55.3 NC_001493.1 + 124007 0.66 0.873777
Target:  5'- --gAGUCACUCC-UGugGcGCCGCGc- -3'
miRNA:   3'- cugUCGGUGAGGaACugC-CGGUGUua -5'
3023 3' -55.3 NC_001493.1 + 105850 0.67 0.842001
Target:  5'- ---cGCCguACUCUUUGGUGGCCACGAc -3'
miRNA:   3'- cuguCGG--UGAGGAACUGCCGGUGUUa -5'
3023 3' -55.3 NC_001493.1 + 126570 0.68 0.788428
Target:  5'- cGGCGGCuCGCUCUaauaugacGGCGGCCAUggUu -3'
miRNA:   3'- -CUGUCG-GUGAGGaa------CUGCCGGUGuuA- -5'
3023 3' -55.3 NC_001493.1 + 11016 0.68 0.788428
Target:  5'- cGGCGGCuCGCUCUaauaugacGGCGGCCAUggUu -3'
miRNA:   3'- -CUGUCG-GUGAGGaa------CUGCCGGUGuuA- -5'
3023 3' -55.3 NC_001493.1 + 18108 0.68 0.77892
Target:  5'- cACGGCCAUUCCcgUGGCGGacaGCGGg -3'
miRNA:   3'- cUGUCGGUGAGGa-ACUGCCgg-UGUUa -5'
3023 3' -55.3 NC_001493.1 + 133663 0.68 0.77892
Target:  5'- cACGGCCAUUCCcgUGGCGGacaGCGGg -3'
miRNA:   3'- cUGUCGGUGAGGa-ACUGCCgg-UGUUa -5'
3023 3' -55.3 NC_001493.1 + 95863 0.69 0.698662
Target:  5'- uGACgAGCCACUCCau--CGGUCACAc- -3'
miRNA:   3'- -CUG-UCGGUGAGGaacuGCCGGUGUua -5'
3023 3' -55.3 NC_001493.1 + 35714 0.71 0.635676
Target:  5'- cGAUggGGUCAauCUUCUUGACGGCCAUGAa -3'
miRNA:   3'- -CUG--UCGGU--GAGGAACUGCCGGUGUUa -5'
3023 3' -55.3 NC_001493.1 + 90882 0.73 0.511025
Target:  5'- cAUAaCCAC-CCUUGGCGGCCGCGGa -3'
miRNA:   3'- cUGUcGGUGaGGAACUGCCGGUGUUa -5'
3023 3' -55.3 NC_001493.1 + 117381 1.06 0.003525
Target:  5'- aGACAGCCACUCCUUGACGGCCACAAUg -3'
miRNA:   3'- -CUGUCGGUGAGGAACUGCCGGUGUUA- -5'
3023 3' -55.3 NC_001493.1 + 1827 1.06 0.003525
Target:  5'- aGACAGCCACUCCUUGACGGCCACAAUg -3'
miRNA:   3'- -CUGUCGGUGAGGAACUGCCGGUGUUA- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.